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A novel model-free approach for reconstruction of time-delayed gene regulatory networks

中国科学：生命科学英文版 2006年第2期49卷 190-200页

作者： JIANG Wei1,2. LI Xia1,2.3,4, GUO Zheng1,2.3, LI Chuanxing1, WANG Lihong1 & RAO Shaoqi1,5 1. Department of Bioinformatics, harbin Medical university, harbin 150086, China 2. Department of Computer science, harbin Institute of Technology, harbin 150080, China 3. School of Life science and Technology, Tongji university, Shanghai 2.0092. China 4. Biomedical engineering Institute, Capital university of Medical sciences, Beijing 100054, China 5. Departments of Cardiovascular Medicine and Molecular Cardiology, Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA Department of Bioinformatics Harbin Medical University Harbin 150086 China Department of Computer science Harbin Institute of Technology Harbin 150080 China School of Life science Technology Tongji University Shanghai 200092 China Biomedical engineering Institute Capital University of Medical Sciences Beijing 100054 China Departments of Cardiovascular Medicine Molecular Cardiology Cleveland Clinic Foundation Cleveland Ohio 44195 USA

Reconstruction of genetic networks is one of the key scientific challenges in functional genomics. This paper describes a novel approach for addressing the regulatory dependencies be-tween genes whose activities can be delayed by multiple units of time. The aim of the proposed ap-proach termed TdGRN (time-delayed gene regulatory networking) is to reversely engineer the dy-namic mechanisms of gene regulations, which is realized by identifying the time-delayed gene regu-lations through supervised decision-tree analysis of the newly designed time-delayed gene expres-sion matrix, derived from the original time-series microarray data. A permutation technique is used to determine the statistical classification threshold of a tree, from which a gene regulatory rule(s) is ex-tracted. The proposed TdGRN is a model-free approach that attempts to learn the underlying regula-tory rules without relying on any model assumptions. Compared with model-based approaches, it has several significant advantages: it requires neither any arbitrary threshold for discretization of gene transcriptional values nor the definition of the number of regulators (k). We have applied this novel method to the publicly available data for budding yeast cell cycling. The numerical results demonstrate that most of the identified time-delayed gene regulations have current biological knowledge supports.

关键词： gene regulatory networks, time delayed, decision tree.

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Boundary conditions for the bending of a piezoelectric beam

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science China(Physics,Mechanics & Astronomy) 2008年第7期51卷 847-856页

作者： GAO Yang1, XU SiPeng2.& ZHAO BaoSheng3 1 college of science, China Agricultural {2., Beijing 100083, China 2.college of engineering, Ocean {2. of China, Qingdao 2.6071, China 3 School of Mechanical engineering, {2. of science and Technology Liaoning, Anshan 114044, China 1. college of science China Agricultural University Beijing 100083 China 2. college of engineering Ocean University of China Qingdao 266071 China 3. School of Mechanical engineering University of Science and Technology Liaoning Anshan 114044 China

For beam bending in transversely isotropic piezoelectric media, the reciprocal theorem and the general solution of piezoelasticity are applied in a novel way to obtain the appropriate stress and mixed boundary conditions accurate to all orders for the beam of general edge geometry and loadings. By generalizing the method developed by Gregory and Wan, a set of necessary conditions on the edge-data for the existence of a rapidly decaying solution is established. The prescribed edge-data of the beam must satisfy these conditions in order that they could generate a decaying state within the beam. When stress and mixed conditions are imposed on the beam edge, these decaying state conditions for the case of bending deformation of piezoelectric beam are derived explicitly. They are then used for the correct formulation of boundary conditions for the beam theory solution (or the interior solution). Besides, an analytical solution of elastic beam is formulated to verify validity of our boundary conditions. For the stress data, our boundary conditions coincide with those obtained in conventional forms of beam theories. More importantly, the appropriate boundary conditions with two sets of mixed edge-data are obtained for the first time.

关键词： boundary conditions beam bending piezoelectric media decaying states regular states

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Mixed boundary conditions for piezoelectric plates

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science China(Physics,Mechanics & Astronomy) 2009年第5期52卷 755-761页

作者： GAO Yang 1 ,XU SiPeng 2.&ZHAO BaoSheng 3 1college of science,China Agricultural {2.,Beijing 100083,China 2.0} of engineering,Ocean {2. of China,Qingdao 2.6071,China 3 School of Mechanical engineering,{2. of science and Technology of Liaoning,Anshan 114044,China college of science China Agricultural University Beijing 100083 China college of engineering Ocean University of China Qingdao 266071 China School of Mechanical engineering University of Science and Technology of Liaoning Anshan 114044 China

For plate bending and stretching problems in piezoelectric materials,the reciprocal theorem and the general solution of piezoelasticity are applied in a novel way to obtain the appropriate mixed boundary conditions accurate to all order.A decay analysis technique is used to establish necessary conditions that the prescribed data on the edge of the plate must satisfy in order that it should generate a decaying state within the *** the case of axisymmetric bending and stretching of a circular plate,these decaying state conditions are obtained explicitly for the first time when the mixed conditions are imposed on the plate *** are then used for the correct formulation of boundary conditions for the interior solution.

关键词： boundary conditions piezoelectric plates mixed data bending problems stretching problems

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Quality differences between NILs of wheat variety Long 97-586 possessing HMW-GS 7+8 and 7

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science China(Life sciences) 2010年第2期53卷 286-291页

作者： ZHANG LiLi1,2.ZHANG YanBin1,2.LI JiLin2.ZHAO HaiBin1,SONG QingJie1,YU HaiYang1,ZHANG ChunLi1,XIN WenLi1 & XIAO ZhiMin1 1 Crop Breeding Institute,Heilongjiang Academy of Agricultural sciences,harbin 150086,China 2.{2. of Life and Environment science,harbin Normal university,harbin 15002.,China 1. Crop Breeding Institute Heilongjiang Academy of Agricultural Sciences Harbin 150086 China2. College of Life and Environment Science Harbin Normal University Harbin 150025 China

The high molecular weight glutenin subunits (HMW-GS) 7+8 were introduced into the Long 97–586 (1,7,2.12. wheat variety (Triticum aestivum) by 5 consecutive backcrosses with biochemical marker–assisted *** isogenic lines (NILs) of HMW-GS 7 and 7+8 were obtained,and the NILs were planted in the experimental field at the Crop Breeding Institute of Heilongjiang Academy of Agricultural science in 2.04–*** field experiments were designed using the two-column contrast arrangement method with six replicates in 2.04–2.05 and four replicates in *** result of three years experiments showed that the differences between NILs of Long 97–586 with subunit 7 and those with subunits 7+8 in the quality parameters of flour protein content and dry gluten content were negligible (P>0.1).However,the differences in some of the quality parameters were remarkably significant (P<0.01),including wet gluten content,ratio of wet gluten/dry gluten,gluten index,Zeleny sedimentation,ratio of sedimentation/dry gluten,and the farinogram parameters of water absorption,development time,stability,breakdown time and degree of *** difference between NILs with subunits 7+8 and subunit 7 was significant (P<0.05) on the alveogram W value and had a critical value (P=0.05) on the alveogram P value in *** results show that HMW-GS 7+8 is far superior to HMW-GS 7 in terms of baking *** possibilities of using subunits 7+8 and subunit 7 in breeding strong and weak gluten wheat varieties are discussed in this paper.

关键词： wheat quality HMW-GS nearly isogenic lines (NILs)

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Sintering technology for micro heat pipe with sintered wick

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Journal of Central South university 2010年第1期17卷 102-109页

作者：李西兵汤勇李勇周述璋曾志新 Department of Mechanical and Power engineering Harbin University of Science and Technology School of Mechanical engineering Qiqihar University School of Mechanical and Automotive engineering South China University of Technology

In order to study reasonable sintering technological parameters and appropriate copper powder size range of micro heat pipe (MHP) with the sintered wick, the forming principle of copper powders in wicks and MHP's heat transfer capabilities were first analyzed, then copper powders with different cell sizes and dispersions were sintered in RXL-12.11 resistance furnace under the protection of the hydrogen at different sintering temperatures for different durations of sintering time, and finally the sintered wicks' scanning electron microscope (SEM) images and their heat transfer capabilities were analyzed. The results indicate that the wick sintered with copper powders of larger cell size or smaller size range has better sintering properties and larger heat transfer capabilities; and that the increase of either sintering temperatures or sintering time also helps to improve the wick's sintering properties and heat transfer capabilities, and the former affects more obviously than the latter. Considering both its manufacturing cost and performance requirements, it is recommended that copper powders with the size range of 140-170 μm are sintered at 900-950℃ for 30-60 min in practical manufacturing. In addition, two approaches to improve wick's porosity are also proposed through theoretical analysis, which suggests that the larger the wick's porosity, the better the heat transfer capabilities of the MHP.

关键词： micro heat pipe copper powders wick forming principle

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Cell cycle-dependent gene networks relevant to cancer

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Progress in Natural science:Materials International 2008年第8期18卷 945-952页

作者： Yun Xiao a,1, Xia Lia,b,*,1, Yueying Yang a, Yadong Wangc, Shaoqi Rao a,b a college of Bioinformatics science and Technology, and Bio-pharmaceutical Key Laboratory of Heilongjiang Province and State, {2. Medical university, {2. 150086, China b Biomedical engineering Institute of Capital Medical university, Beijing 10004, China c Department of Computer science, {2. Institute of Technology, {2. 150080, China college of Bioinformatics science and Technology and Bio-pharmaceutical Key Laboratory of Heilongjiang Province and State Harbin Medical University Harbin 150086 China Biomedical engineering Institute of Capital Medical university Beijing 10004 China Department of Computer science Harbin Institute of Technology Harbin 150080 China

The analysis of sophisticated interplays between cell cycle-dependent genes in a disease condition is one of the largely unexplored areas in modern tumor biology research. Many cell cycle-dependent genes are either oncogenes or suppressor genes, or are closely associated with the transition of a cell cycle. However, it is unclear how the complicated relationships between these cell cycle-dependent genes are, especially in cancers. Here, we sought to identify significant expression relationships between cell cycle-dependent genes by analyzing a HeLa microarray dataset using a local alignment algorithm and constructed a gene transcriptional network specific to the cancer by assembling these newly identified gene-gene relationships. We further characterized this global network by partitioning the whole network into several cell cycle phase-specific sub-networks. All generated networks exhibited the power-law node-degree distribution, and the average clustering coefficients of these networks were remarkably higher than those of pure scale-free networks, indicating a property of hierarchical modularity. Based on the known protein-protein interactions and Gene Ontology annotation data, the proteins encoded by cell cycle-dependent interacting genes tended to share the same biological functions or to be involved in the same biological processes, rather than interacting by physical means. Finally, we identified the hub genes related to cancer based on the topological importance that maintain the basic structure of cell cycle-dependent gene networks.

关键词： Cell cycle Microarray HeLa cell Gene network

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Surface Nanocrystallization of Magnesium Alloy AZ91D by High-Energy Shot Peening

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Journal of Wuhan university of Technology(Materials science) 2009年第4期24卷 515-519页

作者：张津 School of Materials science & engineering University of Science and Technology Beijing college of Materials science & {2. Chongqing University of Technology

High-energy shot peening （HESP）, a method to produce severe plastic deformation by high velocity flying balls, was applied on die cast magnesium alloy AZ91D. Effects of surface nanocrystallization by HESP and heat treatment at different temperatures were investigated. The mi- crostructure evolution was conducted using X-ray diffraction （XRD） and field emission scanning electronic microscopy （FESEM）. The hardness was measured by microhardness tester. The experimental results show that surface nanocrystrallization of AZ91D obtained by HESP would lead to the increase of microhardness. Low temperature heated at 100℃ for 1 h do not change the property obviously. However, both the microstructure and microhardness vary greatly after heat treatment at 400℃ for 1 h.

关键词： AZ91 D surface nanocrystallization HESP microhardnss corrosion resistance

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Mathematic Expression of Kinetic Compensation Effect and Relationship between the Exothermic Decomposition Temperature and Critical Temperature of Thermal Explosion of Eighty-six Energetic Materials

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含能材料 2001年第1期9卷 8-9页

作者： HU Rong zu 1, YANG De suo 2. ZHANG Jiao qiang 3 (1. Department of Chemistry,Northwest university, Xi′an 710065, China 2. Department of Chemistry and Chemical engineering, Baoji {2. of Arts and science, Baoji 72.007, China 3. Department of 西北大学陕西西安 710065 宝鸡文理学院陕西 721007 西北工业大学陕西西安 710072

Two relationships are established using the least squares method,between the kinetic parameters (the apparent activation energy and pre exponential constant),and the exothermic decomposition temperature and ther... 详细信息

关键词： critical temperature of thermal explosion decomposition temperature DSC energetic materials.

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Coherent coupling of vibrational states in the MEH-PPV film investigated through Multi-Color Photon Echo

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science China(Physics,Mechanics & Astronomy) 2010年第6期53卷 1020-1023页

作者： YU GuoYang 1 ,SONG YunFei 1 ,WANG YingHui 1 ,LIU YuQiang 1 ,MO YueQi 2.& YANG YanQiang 1 1 Center for Condensed Matter science and Technology,Department of Physics,harbin Institute of Technology,harbin 150001,China 2.college of Materials science and engineering,South China university of Technology,Guangzhou 510640,China 1. Center for Condensed Matter science and Technology Department of Physics Harbin Institute of Technology Harbin 150001 China2. College of Materials Science and Engineering South China University of Technology Guangzhou 510640 China

The poly-[2.methoxy,(5-2.-ethyl-hexyloxy)-p-phenylene vinylene](MEH-PPV) film is investigated by means of the Multi-Color Photon Echo(MCPE) technique. Under the three-order nonlinear response theory,the reason for the occurrence of the quantum beats in the time domain and the relations among signal wavevector,pulse sequence and response function are discussed. The analysis of the Raman spectrum of MEH-PPV and the fast Fourier transformation(FFT) results of photon echo(PE) signal dynamics demonstrate the coherent coupling between the C==C bonds and the CC-H bonds and the coherent coupling between the C-C stretching of the phenyl group and the C==C stretching of the vinylene group.

关键词： MCPE quantum beats coherent coupling

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Research on Natural circulation Characteristics

Research on Natural circulation Characteristics

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第三届2.世纪和谐核电系统国际会议（ISSNP2.10）

作者： WANG Kuo1, GUO Yun 2., and ZENG He-yi 3 1. college of Nuclear science and technology,{2., Postal address, harbin 150001, China 2. college of Nuclear science and technology,{2., Postal address, harbin 150001, China 3. college of Nuclear science and technology,{2., Postal address, harbin 150001, China

Natural circulation has played an increasingly important role in the reactor thermal-hydraulic design. The new generation of reactors applied a large number of passive safety facilities, especially, the passive residual heat removal system which rely on the natural circulation. The numerical analysis of its characteristics has engineering significance. In this paper, a simple and typical system of natural circulation loop is established to investigate the parameters’ effects on the instability boundary such as: pressurizer location, condenser location and the diameter and height of rising section. Then the start-up process of natural circulation is also studied in order to explore the existence of minimum power threshold and its influencing factors. At last a correlation for predicting the natural circulation mass flow rate is brought out. The results show that: the position of condenser, the diameter and height of rising section have significant effect on the natural circulation stability. However, the influence of pressurizer location is uncertain. The minimum power threshold of natural circulation does not exist in the parameter range presented in this paper.

关键词： Natural circulation Flow instability Minimum power threshold

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